Evolution of b-type cytochromes in prokaryotes

Koumandou, Vassiliki Lila; Κοσσίδα, Σοφία

doi:10.7287/peerj.preprints.1564

Cited by 3 publications

(2 citation statements)

References 24 publications

(46 reference statements)

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“…Microbial ETCs demonstrate ecological coherence of terminal oxidases such as cytochrome bd, and A-, B-and C-type hemecopper cytochrome families at certain taxonomic ranks (BrochierArmanet et al, 2009;Koumandou and Kossida, 2015). For example, genome comparisons across Proteobacterial classes suggest that the presence of A-type heme copper cytochromes is more widely distributed across Gamma (130/157 genomes), Beta (48/53 genomes) and Alpha-Proteobacteria (79/83 genomes) than EpsilonProteobacteria (0/19) (Brochier-Armanet et al, 2009).…”

Section: Physiological Differences In Electron Transport Chainsmentioning

confidence: 99%

Microbial energy and matter transformation in agricultural soils

Finn

Kopittke

Dennis

et al. 2017

Soil Biology and Biochemistry

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a b s t r a c tLow bioavailability of organic carbon (C) and energy are key constraints to microbial biomass and activity. Microbial biomass, biodiversity and activity are all involved in regulating soil ecosystem services such as plant productivity, nutrient cycling and greenhouse gas emissions. A number of agricultural practices, of which tillage and fertiliser application are two examples, can increase the availability of soil organic C (SOC). Such practices often lead to reductions in soil aggregation and increases in SOC loss and greenhouse gas emissions. This review focuses on how the bioavailability of SOC and energy influence the ecology and functioning of microorganisms in agricultural soils. Firstly we consider how management practices affect the bioavailability of SOC and energy at the ecosystem level. Secondly we consider the interaction between SOC bioavailability and ecological principles that shape microbial community composition and function in agricultural systems. Lastly, we discuss and compare several examples of physiological differences that underlie how microbial species respond to C availability and management practices. We present evidence whereby management practices that increase the bioavailability of SOC alter community structure and function to favour microbial species likely to be associated with increased rates of SOC loss compared to natural ecosystems. We argue that efforts to restore stabilised, sequestered SOC stocks and improve ecosystem services in agricultural systems should be directed toward the manipulation of the microbial community composition and function to favour species associated with reduced rates of SOC loss. We conclude with several suggestions regarding where improvements in multi-disciplinary approaches concerning soil microbiology can be made to improve the sustainability of agricultural systems.

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Section: Physiological Differences In Electron Transport Chainsmentioning

confidence: 99%

Microbial energy and matter transformation in agricultural soils

Finn

Kopittke

Dennis

et al. 2017

Soil Biology and Biochemistry

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show abstract

“…Koumandou and co-workers mapped the distribution of nine bioenergetic modes using 16S rRNA (more later) sequences from 272 species of fully sequenced prokaryotes, which represented the full diversity of prokaryotic ancestries. They reported that there was an irregular distribution of metabolic pathways among different lineages due to gene transfer events and an ancient origin and diversification of b-type cytochromes, which means that bioenergetic pathways were dynamic amid the human gut microbial community [19][20][21].…”

Section: Horizontal Gene Transfermentioning

confidence: 99%

Measuring Microbiome Effectiveness: A Role for Ingestible Sensors

Smith¹,

Jheeta²

2020

Gastrointestinal Disorders

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Across the world there is an increasingly heavy burden of noncommunicable diseases related to obesity, mental health, and atopic disease. In a previous publication, we followed the developing idea that that these conditions arise as our microbiome loses diversity, but there seems to be no generally applicable way to assess the significance of this loss. Our work revisited the findings of the African studies by Denis Burkitt who reported that the frequency of what he called Western diseases were inversely proportional to the average faecal volumes of affected populations. Although he ascribed this to fibre in the diet, it now seems more likely that the drop in faecal volume with the onset of disease is due to the loss of a fully functioning microbiome. We suggested that the microbiome could be considered to be a single mutualistic microbial community interacting with our body by two complementary sets of semiochemicals, i.e., allomones to feed the microbiota by facilitating the efficient transfer of nutrition through the gut and kairomones to calibrate our immune system by an as yet unknown mechanism. The bioactive compounds, dopamine and serotonin, are known to be present in the gut lumen under the influence of intestinal microbiota and we suggest that these are part of this allomone-like system. In light of this possibility, it is of critical importance to develop a method of quantifying the microbiome effectiveness. Ingestible sensors consist of a miniaturized detector and transmitter packed into a capsule that is swallowed and tracked through the intestine. The aim of this article is to explore the possible development of such ingestible detectors for these or other compounds that can act as a surrogate marker for microbiome effectiveness. We consider that the ability to provide real-time quantitative information on the interaction of the microbiome with different nutrients promises to be a valuable new tool to unravel the mystery of these noncommunicable illnesses, i.e., microbiome-function deficiency diseases.

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Molecules to Microbes

Jheeta

2020

Sci

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How did life begin on Earth? And is there life elsewhere in the Cosmos? Challenging questions, indeed. The series of conferences established by NoR CEL in 2013 addresses these very questions. This paper comprises a summary report of oral presentations that were delivered by NoR CEL’s network members during the 2018 Athens conference and, as such, disseminates the latest research which they have put forward. More in depth material can be found by consulting the contributors referenced papers. Overall, the outcome of this conspectus on the conference demonstrates a case for the existence of “probable chemistry” during the prebiotic epoch.

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Evolution of b-type cytochromes in prokaryotes

Cited by 3 publications

References 24 publications

Microbial energy and matter transformation in agricultural soils

Microbial energy and matter transformation in agricultural soils

Measuring Microbiome Effectiveness: A Role for Ingestible Sensors

Molecules to Microbes

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